SMARCA4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006618
Fusion event
HBV-SMARCA4 integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27453547
Virus Sequence
Virus name
HBV
Reference genome
V01460.1
Host Sequence
Chromosome
chr19
Cytoband
p13.2
Reference genome
GRCh38
Start
11034381 (Hg38)
End
11034381 (Hg38)
Location type
Intron
Fragile sites / regions
FRA19B
Target gene
SMARCA4
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-155-5p ; hsa-mir-34a-5p ; hsa-mir-98-5p ; hsa-let-7b-5p ; hsa-mir-342-5p ; hsa-mir-615-3p ; hsa-mir-222-3p ; hsa-mir-16-5p ; hsa-mir-139-5p
Nearest miRNA
hsa-mir-1181/Upstream/205346; hsa-let-7e/Downstream/79093;
Nearest TSS
ENST00000633603/Upstream/258; ENST00000592158/Downstream/641;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/808, chr19-CpG: 29/Downstream/6813
Nearest cancer related gene
SMARCA4(TSG, No orient, 0)
Upstream sequence
TGGTGGTATCCCTAGCAGGTCAGGGAGCCAGGGACAGCTCACAGTGCAGCCCACTCCCACCTCCAGACTGACCCGTCTTCCACCCCCAGTCTCCTGAGGA
Downstream sequence
TGGCATCGGAGGGCGAGATGCACACCCAGCCTTCTGCATGTGACCCGAGACCTGCCCCACCAGCTCTGTTTTCTAACGGGCTCTCCAGGGCTTCATGCAC
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.
Curate